pygenomeviz
Link to section 'Introduction' of 'pygenomeviz' Introduction
pyGenomeViz is a genome visualization python package for comparative genomics implemented based on matplotlib.
Docker hub: https://hub.docker.com/r/staphb/pygenomeviz
Home page: https://github.com/moshi4/pyGenomeViz#cli-examples
Link to section 'Versions' of 'pygenomeviz' Versions
- 0.2.2
Link to section 'Commands' of 'pygenomeviz' Commands
- pgv-download-dataset
- pgv-mmseqs
- pgv-mummer
- pgv-pmauve
- python
- python3
Link to section 'Module' of 'pygenomeviz' Module
You can load the modules by:
module load biocontainers
module load pygenomeviz
Link to section 'Example job' of 'pygenomeviz' Example job
Using #!/bin/sh -l as shebang in the slurm job script will cause the failure of some biocontainer modules. Please use #!/bin/bash instead.
To run pygenomeviz on our clusters:
#!/bin/bash
#SBATCH -A myallocation # Allocation name
#SBATCH -t 1:00:00
#SBATCH -N 1
#SBATCH -n 1
#SBATCH --job-name=pygenomeviz
#SBATCH --mail-type=FAIL,BEGIN,END
#SBATCH --error=%x-%J-%u.err
#SBATCH --output=%x-%J-%u.out
module --force purge
ml biocontainers pygenomeviz